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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttgttgaagaatctgccatttttatcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTGTTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA

Basic information

species Zea mays
transcript GRMZM2G704237_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g05590.1 (Oryza sativa), 3'ss of exon 6
-gtttgttgttgaagaatctgccatttttatcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTG-TTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA
  |||    || ||  | |||   ||  | |||| |||||  ||| | || |  ||| |  |  || || ||  ||||||||||||| ||||||| || ||||||||||||||||||||||| |||||||||||||| ||||| |||||||| ||||||||||||||||||||||||||||||  
gtttttccatttaatgacctgttgttaatgtcttgtaaaa--tgaaacagcacaccattaaatatgcaattttgttacttgcagGTGCTTAACCAAGACGAAACACCCCTACTCTATAGTCTGGTTTTTGGTGAAGGGGTTGTCAATGATGCTACATCTGTTGTGCTCTTTAATGCAATTGAAG-

upper sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA03G40290.1 (Glycine max), 3'ss of exon 5
gtttgttgttgaagaatctgccatttttatcttataaaaattgagat-aggaagccaat--ttaattggaaattcattact-----tgcagGTGTTAA-CCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA
    ||| | ||| ||| ||    ||||  |  |        |  |  | |  | ||||  ||| |    || | || | |     |||||||| ||| ||||||||| |||||  |||| || ||||| || ||||| || |||||||| |||||||| |||||||| ||||| || ||||||||  ||| 
----gtt-tggaacaatatgtgcctttttccgcaacgttgcagcaaccaaggtgtcaatgcttagtactgaacttataaatgatgttgcagGTGCTAAACCAGGATGAGACACCTTTACTGTACAGTCTTGTATTTGGCGAGGGTGTTGTGAATGATGCTACATCTGTGGTGCTTTTCAATGCAATCAAAA-

upper sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G42900.1 (Glycine max), 3'ss of exon 5
gtttgttgttgaaga-atctgccatttttatcttataaaaattgagataggaagccaatttaattgg-aaattcattact-----tgcagGTGTTAA-CCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA
    |||    | || || |||| ||||     | ||  |     || |||   | |   ||| |    |||| || | |     |||||||| ||| ||||||||| |||||  |||| || ||||| || ||||| || |||||||| |||||||| |||||||||||||| |||||||||||  ||| 
----gtttggaacgatatgtgcctttttcgcaatgtagcagcaacga-aggtgtcaatgctaagtactgaatttataaatgatgttgcagGTGCTAAACCAGGATGAGACACCTTTACTGTACAGTCTTGTATTTGGCGAGGGTGTTGTGAATGATGCTACATCTGTTGTGCTTTTTAATGCAATAAAAA-

upper sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 6
-------gtttgttgttgaagaatctgccatttttatctta-taaaaattgagataggaagccaatttaattggaaattcattacttgcagGTG-TTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA
        ||| ||  ||||  ||       | ||||  || || |  ||   ||   ||   || ||    |    ||  |||  |  ||||| |||| || || || ||||| ||  | || ||||| || ||||| |||||||| || || ||||||||||| || |||||||| ||||||||  | | 
gtaagaactttttttctgaaacattcaaagatattattctactacattttctaatcaaaaattaacttgcacg---ctttgttaaatctagGTGCTTAATCAAGACGAGACACCTCTCTTGTACAGTCTTGTCTTTGGAGAAGGTGTAGTGAACGATGCCACATCGGTCGTGCTCTTCAATGCAATACAGA-

upper sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT3G05030.2 (Arabidopsis thaliana), 3'ss of exon 2
gtttgttgt-tgaagaatctgccatttttatcttataaaaattgagataggaagccaatttaattggaaat-tcattactt-------gcagGTGTT-AACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA
    ||  | |||     |    |     |    ||| |     |||    |||   | ||||    || | |  || |||        |||||  | || || ||||| |||||  | || || ||||| || ||||| || || ||||| |||||||||||||||||||||||||| ||||| ||| | | 
----gtaatgtgattcgccaattagcagaagtacatacaggcccagaatcaaagtgtaattaacaaaaactcttgttcctttggtgatacagGTTCTCAATCAAGATGAGACACCTTTGCTTTACAGTCTTGTATTTGGAGAGGGCGTTGTGAATGATGCCACATCTGTTGTGCTCTTCAATGCTATTCAGA-

upper sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 6
-----gtttgttgttgaagaatctgccatttttatcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTG-TTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA
     | | |   |   |   | ||    | |||     |  ||      | |      ||| ||| ||    | ||      |||||||| |||| |||||||| |||||| ||||||| ||||| |||||||| ||||||||||| ||||||||||||||||| ||||| || ||||||||  | | 
gtacagatggccttactaagctgtgatcctgttactagttctaagggacaacacttccacaacttatttatccaatccaattgtgcagGTGCTTAATCAGGATGAGACACCCTTACTCTACAGTCTGGTTTTTGGAGAAGGTGTTGTGAATGATGCCACATCTGTGGTGCTTTTCAATGCAATCCAGA-

upper sequence: GRMZM2G704237_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv07s0104g01280.t01 (Vitis vinifera), 3'ss of exon 5
------gtttgttgttgaagaatctgccatttttatcttataaaaattgagataggaag---ccaatttaattggaaattcattacttgcagGTGTT-AACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA
       | | || |  | |   |||  ||| |  |   ||||        |||| |     |  | | || |    ||    || | ||||||| | || |||||||| |||||  | || || |||||||| ||||| |||||||| || |||||||||||||||||                        
gtatagatatcttctcaagg---ctgtgattctgcttccataatggggacaatagaacatttctgactaaagtttgcatctgata-tggcagGTGCTCAATCAGGATGAGACACCTTTGCTATACAGTCTAGTCTTTGGGGAAGGTGTGGTAAATGATGCCACATCTGTG-----------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttataaaaattgagataggaagccaatttaattggaaattcattacttgcagGTGTTAACCAGGATGAAACACCCCTACTCTATAGTCTAGTTTTTGGTGAAGGTGTTGTTAATGATGCCACATCTGTTGTGCTCTTTAATGCAATTGAAAA
                            atttaat  putative branch site (score: 4)
                           aatttaattggaaatt  TA-rich tract